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Protein conformational diversity correlates with evolutionary rate
(Oxford University Press, 2013-04)
Native state of proteins is better represented by an ensemble of conformers in equilibrium than by only one structure. The extension of structural differences between conformers characterizes the conformational diversity ...
Intrinsically Disordered Protein Ensembles Shape Evolutionary Rates Revealing Conformational Patterns
(Academic Press Ltd - Elsevier Science Ltd, 2021-02-05)
Intrinsically disordered proteins (IDPs) lack stable tertiary structure under physiological conditions. The unique composition and complex dynamical behaviour of IDPs make them a challenge for structural biology and molecular ...
Evolutionary patterns of mandible shape diversification of caviomorph rodents
(Springer, 2020-06)
Caviomorphs are a mainly South American rodent clade with high taxonomic and ecomorphological diversity. In this study, we combine geometric morphometric, functional, ancestral reconstruction, and macroevolutionary analyses ...
A note on the complexity of evolutionary dynamics in a classic consumer-resource model
(2020)
We study how the complexity of evolutionary dynamics in the classic MacArthur consumer-resource model depends on resource uptake and utilization rates. The traditional assumption in such models is that the utilization rate ...
The Evolutionary Radiation of Hominids: a Phylogenetic Comparative Study
(Nature Publishing Group, 2019-12)
Over the last 150 years the diversity and phylogenetic relationships of the hominoids have been one of the main focuses in biological and anthropological research. Despite this, the study of factors involved in their ...
On the analysis of evolutionary change along single branches in a phylogeny
Comparative biologists are sometimes interested in estimating the evolutionary rate along single branches in a phylogeny. I evaluate two methods by which the evolutionary rate along single branches can be compared with the ...
Testing quantitative genetic hypotheses about the evolutionary rate matrix for continuous characters
Aim: Provide a new multivariate hypothesis testing approach for the evolution of continuous characters in a phylogenetic context. Background: Brownian motion is the most commonly used model for the evolution of quantitative ...
Phylogenetic analysis of SARS‐CoV‐2 in the first few months since its emergence
(Veterinary and Human Toxicology, 2020-09)
During the first months of SARS‐CoV‐2 evolution in a new host, contrasting hypotheses have been proposed about the way the virus has evolved and diversified worldwide. The aim of this study was to perform a comprehensive ...
Phylogenetic analysis of the evolutionary correlation using likelihood
Many evolutionary processes can lead to a change in the correlation between continuous characters over time or on different branches of a phylogenetic tree. Shifts in genetic or functional constraint, in the selective ...
Site-Specific Structural Constraints on Protein Sequence Evolutionary Divergence: Local Packing Density versus Solvent Exposure
(Oxford University Press, 2013-10)
Protein sequences evolve under selection pressures imposed by functional and biophysical requirements, resulting in site-dependent rates of amino acid substitution. Relative solvent accessibility (RSA) and local packing ...